Genome-wide association implicates numerous genes underlying ecological trait variation in natural populations of Populus trichocarpa

Genome-wide association implicates numerous genes underlying ecological trait variation in natural populations of Populus trichocarpa

© 2014 The Authors. New Phytologist © 2014 New Phytologist Trust.

Bibliographische Detailangaben
Veröffentlicht in:The New phytologist. - 1979. - 203(2014), 2 vom: 05. Juli, Seite 535-553
1. Verfasser: McKown, Athena D (VerfasserIn)
Weitere Verfasser: Klápště, Jaroslav, Guy, Robert D, Geraldes, Armando, Porth, Ilga, Hannemann, Jan, Friedmann, Michael, Muchero, Wellington, Tuskan, Gerald A, Ehlting, Jürgen, Cronk, Quentin C B, El-Kassaby, Yousry A, Mansfield, Shawn D, Douglas, Carl J
Format: Online-Aufsatz
Sprache:English
Veröffentlicht: 2014
Zugriff auf das übergeordnete Werk:The New phytologist
Schlagworte:Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S. Unified Mixed Model biomass ecophysiology genome-wide association study (GWAS) phenology pleiotropy poplar mehr... single nucleotide polymorphisms (SNP) array Genetic Markers
LEADER 01000naa a22002652 4500
001 NLM23753360X
003 DE-627
005 20231224111846.0
007 cr uuu---uuuuu
008 231224s2014 xx |||||o 00| ||eng c
024 7 |a 10.1111/nph.12815  |2 doi 
028 5 2 |a pubmed24n0791.xml 
035 |a (DE-627)NLM23753360X 
035 |a (NLM)24750093 
040 |a DE-627  |b ger  |c DE-627  |e rakwb 
041 |a eng 
100 1 |a McKown, Athena D  |e verfasserin  |4 aut 
245 1 0 |a Genome-wide association implicates numerous genes underlying ecological trait variation in natural populations of Populus trichocarpa 
264 1 |c 2014 
336 |a Text  |b txt  |2 rdacontent 
337 |a ƒaComputermedien  |b c  |2 rdamedia 
338 |a ƒa Online-Ressource  |b cr  |2 rdacarrier 
500 |a Date Completed 14.05.2015 
500 |a Date Revised 30.03.2022 
500 |a published: Print-Electronic 
500 |a Citation Status MEDLINE 
520 |a © 2014 The Authors. New Phytologist © 2014 New Phytologist Trust. 
520 |a In order to uncover the genetic basis of phenotypic trait variation, we used 448 unrelated wild accessions of black cottonwood (Populus trichocarpa) from much of its range in western North America. Extensive data from large-scale trait phenotyping (with spatial and temporal replications within a common garden) and genotyping (with a 34 K Populus single nucleotide polymorphism (SNP) array) of all accessions were used for gene discovery in a genome-wide association study (GWAS). We performed GWAS with 40 biomass, ecophysiology and phenology traits and 29,355 filtered SNPs representing 3518 genes. The association analyses were carried out using a Unified Mixed Model accounting for population structure effects among accessions. We uncovered 410 significant SNPs using a Bonferroni-corrected threshold (P<1.7×10(-6)). Markers were found across 19 chromosomes, explained 1-13% of trait variation, and implicated 275 unique genes in trait associations. Phenology had the largest number of associated genes (240 genes), followed by biomass (53 genes) and ecophysiology traits (25 genes). The GWAS results propose numerous loci for further investigation. Many traits had significant associations with multiple genes, underscoring their genetic complexity. Genes were also identified with multiple trait associations within and/or across trait categories. In some cases, traits were genetically correlated while in others they were not 
650 4 |a Journal Article 
650 4 |a Research Support, Non-U.S. Gov't 
650 4 |a Research Support, U.S. Gov't, Non-P.H.S. 
650 4 |a Unified Mixed Model 
650 4 |a biomass 
650 4 |a ecophysiology 
650 4 |a genome-wide association study (GWAS) 
650 4 |a phenology 
650 4 |a pleiotropy 
650 4 |a poplar 
650 4 |a single nucleotide polymorphisms (SNP) array 
650 7 |a Genetic Markers  |2 NLM 
700 1 |a Klápště, Jaroslav  |e verfasserin  |4 aut 
700 1 |a Guy, Robert D  |e verfasserin  |4 aut 
700 1 |a Geraldes, Armando  |e verfasserin  |4 aut 
700 1 |a Porth, Ilga  |e verfasserin  |4 aut 
700 1 |a Hannemann, Jan  |e verfasserin  |4 aut 
700 1 |a Friedmann, Michael  |e verfasserin  |4 aut 
700 1 |a Muchero, Wellington  |e verfasserin  |4 aut 
700 1 |a Tuskan, Gerald A  |e verfasserin  |4 aut 
700 1 |a Ehlting, Jürgen  |e verfasserin  |4 aut 
700 1 |a Cronk, Quentin C B  |e verfasserin  |4 aut 
700 1 |a El-Kassaby, Yousry A  |e verfasserin  |4 aut 
700 1 |a Mansfield, Shawn D  |e verfasserin  |4 aut 
700 1 |a Douglas, Carl J  |e verfasserin  |4 aut 
773 0 8 |i Enthalten in  |t The New phytologist  |d 1979  |g 203(2014), 2 vom: 05. Juli, Seite 535-553  |w (DE-627)NLM09818248X  |x 1469-8137  |7 nnns 
773 1 8 |g volume:203  |g year:2014  |g number:2  |g day:05  |g month:07  |g pages:535-553 
856 4 0 |u http://dx.doi.org/10.1111/nph.12815  |3 Volltext 
912 |a GBV_USEFLAG_A 
912 |a SYSFLAG_A 
912 |a GBV_NLM 
912 |a GBV_ILN_350 
951 |a AR 
952 |d 203  |j 2014  |e 2  |b 05  |c 07  |h 535-553